lpNet: a linear programming approach to reconstruct signal transduction networks

Dynamic probabilistic threshold networks to infer signaling pathways from time-course perturbation data

(2014) Narsis A Kiani et al.   BMC BIOINFORMATICS

Sorad: a systems biology approach to predict and modulate dynamic signaling pathway response from phosphoproteome time-course measurements

(2013) Tarmo Äijö et al.   BIOINFORMATICS

Reconstruction of Cellular Signal Transduction Networks Using Perturbation Assays and Linear Programming

(2013) Bettina Knapp et al.   PLoS One

Boolean network inference from time series data incorporating prior biological knowledge

(2012) Saad Haider et al.   BMC GENOMICS

Hub-Centered Gene Network Reconstruction Using Automatic Relevance Determination

(2012) Matthias Böck et al.   PLoS One

Inference of S-system models of genetic networks by solving one-dimensional function optimization problems

(2011) S. Kimura et al.   MATHEMATICAL BIOSCIENCES

Dynamic deterministic effects propagation networks: learning signalling pathways from longitudinal protein array data

(2010) C. Bender et al.   BIOINFORMATICS

Deterministic Effects Propagation Networks for reconstructing protein signaling networks from multiple interventions

(2009) Holger Fröhlich et al.   BMC BIOINFORMATICS